Journal of Animal Breeding and Genomics (J Anim Breed Genom)
Hong-Sik Kong1,2, Yoonseok Lee1,2,*
1School of Biotechnology, Hankyong National University, Gyeonggi-do, Anseong, 17579, Republic of Korea
2Center for Genetic Information, Hankyong National University, Gyeonggi-do, Anseong, 17579, Republic of Korea
Correspondence to Yoonseok Lee, E-mail: yoonseok95@hknu.ac.kr
Volume 7, Number 2, Pages 25-35, June 2023.
Journal of Animal Breeding and Genomics 2023, 7(2), 25-35. https://doi.org/10.12972/jabng.20230004
Received on 17 May, 2023, Revised on 17 May, 2023, Accepted on 26 June, 2023, Published on 30 June, 2023.
Copyright © 2023 Korean Society of Animal Breeding and Genetics.
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0).
This study aims to enhance the accuracy of genome selection for economic traits in Korean native cattle through the identification of single nucleotide polymorphisms (SNPs) located in microRNA sequences associated with lipid metabolism. We assembled and mapped the Hanwoo genome using whole-genome sequencing data from the NCBI’s Sequence Read Archive and the National Institute of Animal Science. This allowed us to discover a total of 25,982,458 variants (21,795,577 SNPs and 4,186,881 Indels). Annotation revealed that a significant number of these variants were located in intergenic and intronic regions, while others were found to alter the DNA, creating amino acid substitutions, premature stop codons, or silent mutations. A high proportion of variants were observed in the protein coding regions and miRNA, with 24 and 74,205 variants identified in Impact_LOW and Impact_MODIFIER, respectively. In addition, we identified 18 putative miRNAs that were differentially expressed in subcutaneous and intramuscular fat tissues. Especially, bta-mir-143 and bta-mir-145 were highly expressed in intramuscular fat tissue. These results could support the impact on the potential regulatory roles of miRNAs in bovine adipogenesis, and could prove beneficial for improving the accuracy of Hanwoo breeding programs.
Korean native cattle, MicroRNA, Single nucleotide polymorphism, Whole-genome sequence, Lipid metabolism
We are also grateful to the members of our research team who actively participated in data collection, analysis, and discussion. Their diligent efforts and expertise significantly contributed to the success of this project. Furthermore, we extend our thanks to the National Institute of Animal Science for providing the Hanwoo sequencing data that enabled us to carry out this research.
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